C-It-Loci: A knowledge database for tissue-enriched loci.

Institute of Cardiovascular Regeneration, Goethe-University Frankfurt am Main

Gene Info

Description: sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4D
Gene AccessionGene NameTax IDStrandPositionGene Biotype
ENSG00000187764 SEMA4D 9606 - 9:89360787-89498130 protein_coding
  Transcript Accession Transcript Name Position Transcript Biotype
  ENST00000339861 SEMA4D-006 89360787-89498038 protein_coding
  ENST00000356444 SEMA4D-201 89377237-89455953 protein_coding
  ENST00000418828 SEMA4D-014 89402945-89436463 protein_coding
  ENST00000420101 SEMA4D-008 89361601-89364651 protein_coding
  ENST00000420670 SEMA4D-015 89405454-89497432 protein_coding
  ENST00000420681 SEMA4D-013 89393631-89436483 protein_coding
  ENST00000420987 SEMA4D-202 89360791-89455953 protein_coding
  ENST00000422704 SEMA4D-005 89377391-89498089 protein_coding
  ENST00000429836 SEMA4D-003 89361979-89479890 nonsense_mediated_decay
  ENST00000433650 SEMA4D-016 89402896-89405926 protein_coding
  ENST00000438547 SEMA4D-004 89377235-89479890 protein_coding
  ENST00000450295 SEMA4D-018 89376386-89418833 protein_coding
  ENST00000455551 SEMA4D-001 89361609-89498130 protein_coding
  ENST00000464051 SEMA4D-002 89405561-89418233 processed_transcript
  ENST00000469653 SEMA4D-009 89361601-89369519 processed_transcript
  ENST00000474258 SEMA4D-017 89387172-89388726 retained_intron
  ENST00000475255 SEMA4D-007 89361601-89365654 processed_transcript
  ENST00000482128 SEMA4D-012 89405602-89436578 processed_transcript
  ENST00000486935 SEMA4D-011 89379375-89381843 retained_intron
  ENST00000492386 SEMA4D-010 89360791-89377282 retained_intron
  ENST00000537934 SEMA4D-019 89362239-89479890 nonsense_mediated_decay
  ENST00000540183 SEMA4D-022 89379587-89381187 retained_intron
  ENST00000540475 SEMA4D-020 89402925-89479890 protein_coding
  ENST00000544513 SEMA4D-021 89381056-89386749 retained_intron

Expression Patterns

Heat Map
Numeric Values
Transcript'; AdiposeAdrenalBladderBrainBreastColonHeartKidneyLiverLungMuscleOvaryPlacentaTestisENST00000356444ENST00000420987ENST00000422704ENST00000438547ENST00000450295ENST00000455551ENST00000475255ENST00000492386ENST00000540475
Transcript ID Adipose Adrenal Bladder Brain Breast Colon Heart Kidney Liver Lung Muscle Ovary Placenta Testis
ENST00000356444 0.539±0.00 7.812±0.00 N/A N/A 0.629±0.00 0.299±0.00 N/A N/A N/A 1.512±0.00 N/A 3.492±2.27 1.316±0.37 N/A
ENST00000420987 N/A N/A N/A N/A N/A N/A N/A N/A N/A N/A 4.070±0.00 N/A N/A N/A
ENST00000422704 0.762±0.00 17.238±0.00 0.632±0.00 1.436±0.00 1.333±0.00 1.569±0.23 N/A 4.550±3.87 0.664±0.07 3.992±2.57 N/A 4.288±1.51 1.495±0.17 5.629±0.00
ENST00000438547 N/A N/A 1.068±0.00 3.274±0.00 2.293±0.00 N/A 0.046±0.00 0.271±0.00 N/A N/A N/A 0.967±0.00 N/A 4.532±2.36
ENST00000450295 N/A N/A 0.572±0.00 N/A 0.708±0.00 N/A N/A N/A N/A N/A N/A N/A N/A N/A
ENST00000455551 N/A N/A N/A N/A N/A 0.507±0.00 6.032±0.00 N/A N/A N/A 13.199±10.38 N/A N/A N/A
ENST00000475255 N/A N/A N/A N/A N/A N/A N/A N/A N/A N/A N/A 2.581±0.00 N/A N/A
ENST00000492386 N/A N/A N/A N/A N/A N/A 0.227±0.00 N/A N/A N/A N/A 2.562±0.67 N/A 11.454±0.00
ENST00000540475 N/A N/A N/A N/A N/A N/A 0.333±0.00 N/A N/A N/A N/A N/A N/A N/A

Conserved Regions

Region IDSub-RegionRegion TypePosition
CIL_0006BJ CIL_0006BJ_0001 CGP 9:89360787-89606555

Gene Ontology
GO IDEvidence TypeGO Description
GO:0000122 IMP negative regulation of transcription from RNA polymerase II promoter
GO:0001934 IDA positive regulation of protein phosphorylation
GO:0004872 IDA:IEA receptor activity
GO:0004888 IMP transmembrane signaling receptor activity
GO:0005102 IDA receptor binding
GO:0005515 IPI:IEA protein binding
GO:0005615 ISS extracellular space
GO:0005886 TAS plasma membrane
GO:0005887 IDA integral component of plasma membrane
GO:0006955 TAS immune response
GO:0007155 TAS cell adhesion
GO:0007162 IDA negative regulation of cell adhesion
GO:0007275 IEA multicellular organismal development
GO:0007411 TAS axon guidance
GO:0008360 IMP regulation of cell shape
GO:0010693 IMP negative regulation of alkaline phosphatase activity
GO:0014068 IMP positive regulation of phosphatidylinositol 3-kinase signaling
GO:0016020 IEA membrane
GO:0030215 ISS semaphorin receptor binding
GO:0030335 ISS positive regulation of cell migration
GO:0031344 IMP regulation of cell projection organization
GO:0032321 ISS positive regulation of Rho GTPase activity
GO:0043066 TAS negative regulation of apoptotic process
GO:0043931 IMP ossification involved in bone maturation
GO:0045668 ISS negative regulation of osteoblast differentiation
GO:0048672 IMP positive regulation of collateral sprouting
GO:0048814 IMP regulation of dendrite morphogenesis
GO:0050731 ISS positive regulation of peptidyl-tyrosine phosphorylation
GO:0050732 ISS negative regulation of peptidyl-tyrosine phosphorylation
GO:0050772 IEA positive regulation of axonogenesis
GO:0070486 IMP leukocyte aggregation
GO:0071526 IDA semaphorin-plexin signaling pathway
GO:1900220 ISS semaphorin-plexin signaling pathway involved in bone trabecula morphogenesis

Homologs

ENSEMBL Accession Gene Name Description Biotype Species
ENSDARG00000067801 SEMA4D sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4D protein_coding Danio_rerio
ENSMUSG00000021451 Sema4d sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4D protein_coding Mus_musculus

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